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Volume 6, Issue 10

Analysis of the diversity of the glycoside hydrolase family 130 in mammal gut microbiomes reveals a novel mannoside-phosphorylase function Open Access

Abstract

Mannoside phosphorylases are involved in the intracellular metabolization of mannooligosaccharides, and are also useful enzymes for the synthesis of oligosaccharides. They are found in glycoside hydrolase family GH130. Here we report on an analysis of 6308 GH130 sequences, including 4714 from the human, bovine, porcine and murine microbiomes. Using sequence similarity networks, we divided the diversity of sequences into 15 mostly isofunctional meta-nodes; of these, 9 contained no experimentally characterized member. By examining the multiple sequence alignments in each meta-node, we predicted the determinants of the phosphorolytic mechanism and linkage specificity. We thus hypothesized that eight uncharacterized meta-nodes would be phosphorylases. These sequences are characterized by the absence of signal peptides and of the catalytic base. Those sequences with the conserved E/K, E/R and Y/R pairs of residues involved in substrate binding would target β-1,2-, β-1,3- and β-1,4-linked mannosyl residues, respectively. These predictions were tested by characterizing members of three of the uncharacterized meta-nodes from gut bacteria. We discovered the first known β-1,4-mannosyl-glucuronic acid phosphorylase, which targets a motif of the lipopolysaccharide O-antigen. This work uncovers a reliable strategy for the discovery of novel mannoside-phosphorylases, reveals possible interactions between gut bacteria, and identifies a biotechnological tool for the synthesis of antigenic oligosaccharides.

  • Received:
  • Accepted:
  • Published Online:
Keyword(s): GH130 CAZy family , glycoside phosphorylases , gut microbiomes , mannosides and sequence similarity networks
Funding
This study was supported by the:
  • China Scholarship Council
    • Principle Award Recipient: Ao Li
  • Agence Nationale de la Recherche (Award ANR-16-CE20-0006, Oligomet)
    • Principle Award Recipient: Gabrielle Potocki-Veronese
  • Horizon 2020 Framework Programme (Award LEIT‐BIO‐2015‐685474, Metafluidics)
    • Principle Award Recipient: Gabrielle Potocki-Veronese
© 2020 The Authors
  • This is an open-access article distributed under the terms of the Creative Commons Attribution NonCommercial License.
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2020-07-15
2024-05-16
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Analysis of the diversity of the glycoside hydrolase family 130 in mammal gut microbiomes reveals a novel mannoside-phosphorylase function
M Gen 6, e000404 (2020); https://doi.org/10.1099/mgen.0.000404
/content/journal/mgen/10.1099/mgen.0.000404
/content/journal/mgen/10.1099/mgen.0.000404
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